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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtcagttgcgcagcagccgacagctagcgcaggagatgcgtcggctgggcaagcagtggggccagccggtccgcggcatggggggggggcttgggggcgtcgtcttcgttcgcggaatcgcggctgtgcctgacgcgcgtgacccagcaccttacaccaccgtccccatgccgtcgcccatgcagGTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGCGCGCGCTACAACCTGGGCGAGTTCAAGGAGGAGCTGACGGTGGCCATGG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04477
intron # 5
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|15694025|gb|BI718330.1|BI718330
EST:     TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAG                         GTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
genomic: TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAGgtgggtcagt ... gcccatgcagGTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
EST: gi|22068357|gb|BQ818296.1|BQ818296
EST:     GCGAGTACCCCGGCCCCTGGCAG                         GTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
genomic: GCGAGTACCCCGGCCCCTGGCAGgtgggtcagt ... gcccatgcagGTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
EST: gi|6550075|gb|AV395859.1|AV395859
EST:     TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAG                         GTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
genomic: TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAGgtgggtcagt ... gcccatgcagGTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
EST: gi|23360663|gb|BU648483.1|BU648483
EST:     TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAG                         GTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
genomic: TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAGgtgggtcagt ... gcccatgcagGTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
EST: gi|16073533|gb|BI875529.1|BI875529
EST:     TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAG                         GTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
genomic: TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAGgtgggtcagt ... gcccatgcagGTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
EST: gi|23365483|gb|BU653303.1|BU653303
EST:     TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAG                         GTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
genomic: TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAGgtgggtcagt ... gcccatgcagGTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
EST: gi|23361840|gb|BU649660.1|BU649660
EST:     TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAG                         GTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
genomic: TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAGgtgggtcagt ... gcccatgcagGTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
EST: gi|14233512|gb|BG852328.1|BG852328
EST:     TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAG                         GTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
genomic: TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAGgtgggtcagt ... gcccatgcagGTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
EST: gi|16429986|gb|BI995212.1|BI995212
EST:     TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAG                         GTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
genomic: TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAGgtgggtcagt ... gcccatgcagGTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
EST: gi|22068356|gb|BQ818295.1|BQ818295
EST:     GCGAGTACCCCGGCCCCTGGCAG                         GTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
genomic: GCGAGTACCCCGGCCCCTGGCAGgtgggtcagt ... gcccatgcagGTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
EST: gi|15693416|gb|BI717721.1|BI717721
EST:     TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAG                         GTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
genomic: TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAGgtgggtcagt ... gcccatgcagGTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
EST: gi|7616104|gb|AW721544.1|AW721544
EST:     CCGCGAGTACCCCGGCCCCTGGCAG                         GTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
genomic: CCGCGAGTACCCCGGCCCCTGGCAGgtgggtcagt ... gcccatgcagGTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
EST: gi|22070216|gb|BQ819619.1|BQ819619
EST:     TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAG                         GTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
genomic: TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAGgtgggtcagt ... gcccatgcagGTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
EST: gi|14233511|gb|BG852327.1|BG852327
EST:     TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAG                         GTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC
genomic: TCATCAACTACTCGGGCGCGTTGTTCCGCGAGTACCCCGGCCCCTGGCAGgtgggtcagt ... gcccatgcagGTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgacgcgcgtgacccagcaccttacaccaccgtccccatgccgtcgcccatgcagGTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGCGCGCGCTACAACCTGGGCGAGTTCAAGGAGGAGCTGACGGTGGCCATGG
                  accttac  putative branch site (score: 3)
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgggtcagttgcgcagcagccgacagctagcgcaggagatgcgtcggctgggcaagcagtggggccagccggtccgcggcatggggggggggcttgggggcgtcgtcttcgttcgcggaatcgcggctgtgcctgacgcgcgtgacccagcaccttacaccaccgtccccatgccgtcgcccatgcagGTGATGCTGAAGCAGGATGGCGGCGAGTACGCGTGCATCGCCGAGGACCGCGCGCGCTACAACCTGGGCGAGTTCAAGGAGGAGCTGACGGTGGCCATGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA